Results 41 to 50 of about 101,371 (270)
Improved Duplication-Transfer-Loss Reconciliation with Extinct and Unsampled Lineages
Algorithms, 2021 Duplication-Transfer-Loss (DTL) reconciliation is a widely used computational technique for understanding gene family evolution and inferring horizontal gene transfer (transfer for short) in microbes.
Samson Weiner, Mukul S. Bansal
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Forbidden Time Travel: Characterization of Time-Consistent Tree Reconciliation Maps [PDF]
, 2017 Motivation: In the absence of horizontal gene transfer it is possible to reconstruct the history of gene families from empirically determined orthology relations, which are equivalent to event-labeled gene trees.
+5 more
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Terraces in Gene Tree Reconciliation-Based Species Tree Inference [PDF]
, 2020 AbstractTerraces in phylogenetic tree space are sets of trees with identical optimality scores for a given data set, arising from missing data. These were first described for multilocus phylogenetic data sets in the context of maximum parsimony inference and maximum likelihood inference under certain model assumptions. Here we show how the mathematical
Sanderson, Michael J. +2 more
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IEEE Access, 2022 Quantum Cryptography emerged from the limitations of classical cryptography. It will play a vital role in information security after the availability of expected powerful quantum computers.
Chitra Biswas +2 more
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Visualizing Co-Phylogenetic Reconciliations [PDF]
, 2017 We introduce a hybrid metaphor for the visualization of the reconciliations of co-phylogenetic trees, that are mappings among the nodes of two trees. The typical application is the visualization of the co-evolution of hosts and parasites in biology.
Calamoneri, Tiziana +3 more
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Folding and unfolding phylogenetic trees and networks [PDF]
, 2015 Phylogenetic networks are rooted, labelled directed acyclic graphs which are commonly used to represent reticulate evolution. There is a close relationship between phylogenetic networks and multi-labelled trees (MUL-trees).
C Semple +17 more
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Parsimonious clone tree reconciliation in cancer
, 2021 Every tumor is composed of heterogeneous clones, each corresponding to a distinct subpopulation of cells that accumulated different types of somatic mutations, ranging from single-nucleotide variants (SNVs) to copy-number aberrations (CNAs). As the analysis of this intra-tumor heterogeneity has important clinical applications, several computational ...
Sashittal P., Zaccaria S., El-Kebir M.
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Gene duplicability of core genes is highly consistent across all angiosperms [PDF]
, 2016 Gene duplication is an important mechanism for adding to genomic novelty. Hence, which genes undergo duplication and are preserved following duplication is an important question. It has been observed that gene duplicability, or the ability of genes to be
De Smet, Riet +5 more
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Simultaneous Bayesian gene tree reconstruction and reconciliation analysis [PDF]
Proceedings of the National Academy of Sciences, 2009 We present GSR, a probabilistic model integrating gene duplication, sequence evolution, and a relaxed molecular clock for substitution rates, that enables genomewide analysis of gene families. The gene duplication and loss process is a major cause for incongruence between gene and species tree, and deterministic methods have been developed to explain ...
Orjan, Akerborg +3 more
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Inferring gene duplications, transfers and losses can be done in a discrete framework [PDF]
, 2015 UMR AGAP : équipe GE2popInternational audienceIn the field of phylogenetics, the evolutionary history of a set of organisms is commonly depicted by a species tree – whose internal nodes represent speciation events – while the evolutionary history of a ...
Berry, Vincent +3 more
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